8CJV

Structure of bovine CD46 ectodomain (SCR 1-4)

• PDB DOI: https://doi.org/10.2210/pdb8CJV/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Bos taurus
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2023-02-13 Released: 2023-07-12 
• Deposition Author(s): Aitkenhead, H., Stuart, D.I., El Omari, K.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.84 Å
• R-Value Free: 0.285 
• R-Value Work: 0.253 
• R-Value Observed: 0.254 

Starting Model: experimental

Literature

Structure of Bovine CD46 Ectodomain.

Aitkenhead, H., Stuart, D.I., El Omari, K.

(2023) Viruses 15

• PubMed: 37515111 
• DOI: https://doi.org/10.3390/v15071424
• Primary Citation of Related Structures:  
  8CI3, 8CJV


• PubMed Abstract: 
  

  CD46, or membrane cofactor protein, is a type-one transmembrane protein from the complement regulatory protein family. Alongside its role in complement activation, CD46 is involved in many other processes, from T-cell activation to reproduction. It is also referred to as a pathogen magnet, because it is used as a receptor by multiple bacteria and viruses. Bovine CD46 (bovCD46) in particular is involved in bovine viral diarrhoea virus entry, an economically important disease in cattle industries. This study presents the X-ray crystallographic structure of the extracellular region of bovCD46, revealing a four-short-consensus-repeat (SCR) structure similar to that in human CD46. SCR1-3 are arranged linearly, while SCR 4 has a reduced interface angle, resulting in a hockey stick-like appearance. The structure also reveals the bovine viral diarrhoea virus interaction site in SCR1, which is likely to confer pestivirus specificity for their target host, CD46. Insights gained from the structural information on pestivirus receptors, such as CD46, could offer valuable guidance for future control strategies.

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Organizational Affiliation: 

Diamond Light Source (United Kingdom), Harwell Science and Innovation Campus, Didcot OX110DE, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 64.5 kDa 
• Atom Count: 3,504 
• Modelled Residue Count: 448 
• Deposited Residue Count: 578 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Membrane cofactor protein	A, B	289	Bos taurus	Mutation(s): 0  Gene Names: CD46, MCP
UniProt
Find proteins for Q6VE48 (Bos taurus) Explore Q6VE48  Go to UniProtKB:  Q6VE48
Glycosylation
Glycosylation Sites: 2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth A], E [auth B], F [auth B], G [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.84 Å
• R-Value Free: 0.285 
• R-Value Work: 0.253 
• R-Value Observed: 0.254 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 129.731	α = 90
b = 129.731	β = 90
c = 120.193	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data reduction
STARANISO	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-07-12 
Deposition Author(s): Aitkenhead, H., Stuart, D.I., El Omari, K.

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/M011224/1

Revision History  

• Version 1.0: 2023-07-12
  Type: Initial release
  
• Version 1.1: 2023-08-09
  Changes: Database references
• Version 1.2: 2024-11-06
  Changes: Data collection, Structure summary